Multiple sequence alignment - TraesCS1D01G364100

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS1D01G364100 chr1D 100.000 3384 0 0 1 3384 445285225 445288608 0.000000e+00 6250.0
1 TraesCS1D01G364100 chr1D 82.773 1428 162 40 1001 2398 445326307 445324934 0.000000e+00 1197.0
2 TraesCS1D01G364100 chr1D 85.273 1100 114 31 1574 2656 445246728 445247796 0.000000e+00 1090.0
3 TraesCS1D01G364100 chr1D 90.365 301 27 2 3085 3383 194181579 194181879 8.800000e-106 394.0
4 TraesCS1D01G364100 chr1D 90.132 304 25 5 3083 3383 332076041 332075740 1.140000e-104 390.0
5 TraesCS1D01G364100 chr1D 87.584 298 16 8 610 906 445246236 445246513 3.260000e-85 326.0
6 TraesCS1D01G364100 chr1D 79.741 464 47 24 174 593 445245205 445245665 3.300000e-75 292.0
7 TraesCS1D01G364100 chr1D 95.455 176 8 0 1000 1175 445246542 445246717 7.150000e-72 281.0
8 TraesCS1D01G364100 chr1D 94.783 115 5 1 1 115 445326742 445326629 9.650000e-41 178.0
9 TraesCS1D01G364100 chr1D 90.909 99 5 3 2939 3037 445321065 445320971 2.740000e-26 130.0
10 TraesCS1D01G364100 chr1D 83.453 139 11 4 799 926 445326522 445326385 5.930000e-23 119.0
11 TraesCS1D01G364100 chr1D 91.111 45 1 3 923 966 445246512 445246554 1.310000e-04 58.4
12 TraesCS1D01G364100 chr1B 86.928 1683 156 36 1277 2927 608421236 608422886 0.000000e+00 1831.0
13 TraesCS1D01G364100 chr1B 86.869 1683 157 36 1277 2927 608403088 608404738 0.000000e+00 1825.0
14 TraesCS1D01G364100 chr1B 86.242 1461 142 34 1277 2713 608439735 608441160 0.000000e+00 1530.0
15 TraesCS1D01G364100 chr1B 85.634 1427 131 28 1407 2813 610970781 610969409 0.000000e+00 1432.0
16 TraesCS1D01G364100 chr1B 83.990 1143 131 27 1409 2536 606849609 606848504 0.000000e+00 1050.0
17 TraesCS1D01G364100 chr1B 87.402 254 20 7 1001 1244 606849883 606849632 7.150000e-72 281.0
18 TraesCS1D01G364100 chr1B 85.532 235 25 3 1013 1241 610971818 610971587 1.570000e-58 237.0
19 TraesCS1D01G364100 chr1B 92.929 99 5 1 2939 3037 606843714 606843618 3.520000e-30 143.0
20 TraesCS1D01G364100 chr1B 92.157 102 5 2 2829 2927 610969285 610969184 1.270000e-29 141.0
21 TraesCS1D01G364100 chr1B 92.941 85 4 2 1316 1398 610971558 610971474 4.590000e-24 122.0
22 TraesCS1D01G364100 chr1A 83.390 2077 221 71 632 2656 541146121 541148125 0.000000e+00 1810.0
23 TraesCS1D01G364100 chr1A 94.107 1154 43 7 1602 2751 541163988 541165120 0.000000e+00 1731.0
24 TraesCS1D01G364100 chr1A 82.261 1150 145 30 1001 2120 541399871 541398751 0.000000e+00 939.0
25 TraesCS1D01G364100 chr1A 85.401 274 14 10 2790 3037 541213534 541213807 9.310000e-66 261.0
26 TraesCS1D01G364100 chr1A 84.483 232 32 2 173 404 541400894 541400667 3.400000e-55 226.0
27 TraesCS1D01G364100 chr1A 83.913 230 27 8 181 400 541144549 541144778 9.510000e-51 211.0
28 TraesCS1D01G364100 chr1A 94.949 99 3 1 2939 3037 541385279 541385183 1.630000e-33 154.0
29 TraesCS1D01G364100 chr1A 97.727 88 2 0 28 115 541400974 541400887 5.850000e-33 152.0
30 TraesCS1D01G364100 chr1A 95.506 89 3 1 141 229 541164001 541163914 1.270000e-29 141.0
31 TraesCS1D01G364100 chr1A 88.764 89 8 2 839 926 541400036 541399949 1.280000e-19 108.0
32 TraesCS1D01G364100 chr1A 81.197 117 9 2 616 719 541400374 541400258 7.780000e-12 82.4
33 TraesCS1D01G364100 chr1A 100.000 42 0 0 2753 2794 541165378 541165419 1.010000e-10 78.7
34 TraesCS1D01G364100 chr2B 78.770 1187 172 49 1338 2486 736409804 736408660 0.000000e+00 723.0
35 TraesCS1D01G364100 chr2B 81.081 148 21 3 1110 1251 736409981 736409835 9.930000e-21 111.0
36 TraesCS1D01G364100 chr2D 92.282 298 20 3 3088 3383 649551626 649551330 1.450000e-113 420.0
37 TraesCS1D01G364100 chr2D 89.439 303 29 3 3084 3383 25658305 25658003 2.460000e-101 379.0
38 TraesCS1D01G364100 chr2D 82.069 145 26 0 436 580 94315752 94315896 1.270000e-24 124.0
39 TraesCS1D01G364100 chr2D 81.061 132 25 0 436 567 489051394 489051525 4.620000e-19 106.0
40 TraesCS1D01G364100 chr6B 91.176 306 22 3 3083 3383 157658752 157659057 8.740000e-111 411.0
41 TraesCS1D01G364100 chr3D 90.099 303 28 2 3083 3383 27680692 27680390 3.170000e-105 392.0
42 TraesCS1D01G364100 chr3A 89.769 303 29 2 3083 3383 371621286 371621588 1.470000e-103 387.0
43 TraesCS1D01G364100 chr3A 100.000 34 0 0 296 329 457665491 457665458 2.820000e-06 63.9
44 TraesCS1D01G364100 chr4A 89.735 302 29 2 3083 3383 722426836 722427136 5.300000e-103 385.0
45 TraesCS1D01G364100 chr4A 84.496 129 19 1 436 563 74175084 74175212 3.540000e-25 126.0
46 TraesCS1D01G364100 chr7A 90.136 294 26 3 3092 3383 17353213 17352921 2.460000e-101 379.0
47 TraesCS1D01G364100 chr7A 82.443 131 17 4 449 577 136417808 136417934 3.570000e-20 110.0
48 TraesCS1D01G364100 chr7D 80.000 220 41 1 1359 1578 181008730 181008946 3.500000e-35 159.0
49 TraesCS1D01G364100 chr7D 84.444 135 19 2 435 568 596998432 596998299 7.620000e-27 132.0
50 TraesCS1D01G364100 chr7D 81.203 133 25 0 436 568 85875556 85875688 1.280000e-19 108.0
51 TraesCS1D01G364100 chr5A 86.607 112 12 3 448 558 661174391 661174500 1.650000e-23 121.0
52 TraesCS1D01G364100 chr5B 81.159 138 25 1 445 581 559723775 559723638 3.570000e-20 110.0
53 TraesCS1D01G364100 chr5B 83.200 125 16 4 445 567 576228837 576228958 3.570000e-20 110.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS1D01G364100 chr1D 445285225 445288608 3383 False 6250.00 6250 100.0000 1 3384 1 chr1D.!!$F2 3383
1 TraesCS1D01G364100 chr1D 445245205 445247796 2591 False 409.48 1090 87.8328 174 2656 5 chr1D.!!$F3 2482
2 TraesCS1D01G364100 chr1D 445320971 445326742 5771 True 406.00 1197 87.9795 1 3037 4 chr1D.!!$R2 3036
3 TraesCS1D01G364100 chr1B 608421236 608422886 1650 False 1831.00 1831 86.9280 1277 2927 1 chr1B.!!$F2 1650
4 TraesCS1D01G364100 chr1B 608403088 608404738 1650 False 1825.00 1825 86.8690 1277 2927 1 chr1B.!!$F1 1650
5 TraesCS1D01G364100 chr1B 608439735 608441160 1425 False 1530.00 1530 86.2420 1277 2713 1 chr1B.!!$F3 1436
6 TraesCS1D01G364100 chr1B 606848504 606849883 1379 True 665.50 1050 85.6960 1001 2536 2 chr1B.!!$R2 1535
7 TraesCS1D01G364100 chr1B 610969184 610971818 2634 True 483.00 1432 89.0660 1013 2927 4 chr1B.!!$R3 1914
8 TraesCS1D01G364100 chr1A 541144549 541148125 3576 False 1010.50 1810 83.6515 181 2656 2 chr1A.!!$F2 2475
9 TraesCS1D01G364100 chr1A 541163988 541165419 1431 False 904.85 1731 97.0535 1602 2794 2 chr1A.!!$F3 1192
10 TraesCS1D01G364100 chr1A 541398751 541400974 2223 True 301.48 939 86.8864 28 2120 5 chr1A.!!$R3 2092
11 TraesCS1D01G364100 chr2B 736408660 736409981 1321 True 417.00 723 79.9255 1110 2486 2 chr2B.!!$R1 1376

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
443 489 0.037882 CTGGCGCCGATGATGATAGT 60.038 55.0 23.90 0.00 0.00 2.12 F
446 492 0.319900 GCGCCGATGATGATAGTGGT 60.320 55.0 0.00 0.00 0.00 4.16 F
1452 3945 0.107643 TTCTTGCCCGTGTCATGACA 59.892 50.0 24.56 24.56 39.32 3.58 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1354 3161 0.102481 ATAGCAACGACCTACAGCGG 59.898 55.0 0.00 0.0 0.00 5.52 R
1812 4335 0.323725 AGCTTTGGGTGGTAGCCATG 60.324 55.0 0.04 0.0 46.30 3.66 R
2475 5047 0.033920 AGCGACATCACAAGCTCACA 59.966 50.0 0.00 0.0 34.48 3.58 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 21 0.830648 GTCGGATGGATGGAAGTGGA 59.169 55.000 0.00 0.00 0.00 4.02
24 25 3.324846 TCGGATGGATGGAAGTGGATAAG 59.675 47.826 0.00 0.00 0.00 1.73
26 27 4.646572 GGATGGATGGAAGTGGATAAGAC 58.353 47.826 0.00 0.00 0.00 3.01
39 40 2.159085 GGATAAGACAACACTCGGGGAG 60.159 54.545 0.00 0.00 35.52 4.30
154 155 8.849543 ACTACCCCTTAAATCTTGTAGTATGA 57.150 34.615 0.00 0.00 37.66 2.15
155 156 9.448587 ACTACCCCTTAAATCTTGTAGTATGAT 57.551 33.333 0.00 0.00 37.66 2.45
156 157 9.712305 CTACCCCTTAAATCTTGTAGTATGATG 57.288 37.037 0.00 0.00 0.00 3.07
157 158 8.102484 ACCCCTTAAATCTTGTAGTATGATGT 57.898 34.615 0.00 0.00 0.00 3.06
158 159 9.220906 ACCCCTTAAATCTTGTAGTATGATGTA 57.779 33.333 0.00 0.00 0.00 2.29
159 160 9.490379 CCCCTTAAATCTTGTAGTATGATGTAC 57.510 37.037 0.00 0.00 0.00 2.90
160 161 9.490379 CCCTTAAATCTTGTAGTATGATGTACC 57.510 37.037 0.00 0.00 0.00 3.34
161 162 9.193133 CCTTAAATCTTGTAGTATGATGTACCG 57.807 37.037 0.00 0.00 0.00 4.02
162 163 9.745880 CTTAAATCTTGTAGTATGATGTACCGT 57.254 33.333 0.00 0.00 0.00 4.83
310 331 0.974383 AGTGGATCCGGTCTTCGTTT 59.026 50.000 7.39 0.00 37.11 3.60
332 353 2.931325 GTCGGTGTTTGTGTGTCTACAA 59.069 45.455 0.00 0.00 38.82 2.41
333 354 3.371591 GTCGGTGTTTGTGTGTCTACAAA 59.628 43.478 0.00 0.00 45.41 2.83
350 371 7.122650 TGTCTACAAATTGAATCCTTCCAATCC 59.877 37.037 0.00 0.00 32.36 3.01
366 387 5.879763 TCCAATCCACTTTTCTCTTCATCA 58.120 37.500 0.00 0.00 0.00 3.07
387 408 3.865745 CAGCGGAGGTTGTTATTCTAGTG 59.134 47.826 0.00 0.00 33.74 2.74
388 409 3.767673 AGCGGAGGTTGTTATTCTAGTGA 59.232 43.478 0.00 0.00 27.67 3.41
395 416 5.013183 AGGTTGTTATTCTAGTGAGCTGGTT 59.987 40.000 0.00 0.00 0.00 3.67
400 421 7.717568 TGTTATTCTAGTGAGCTGGTTCTATC 58.282 38.462 0.00 0.00 0.00 2.08
413 459 5.057843 TGGTTCTATCGGGTCTACTACAT 57.942 43.478 0.00 0.00 0.00 2.29
437 483 3.993614 TTTGCCTGGCGCCGATGAT 62.994 57.895 23.90 0.00 36.24 2.45
440 486 2.031616 CCTGGCGCCGATGATGAT 59.968 61.111 23.90 0.00 0.00 2.45
441 487 1.293179 CCTGGCGCCGATGATGATA 59.707 57.895 23.90 0.00 0.00 2.15
443 489 0.037882 CTGGCGCCGATGATGATAGT 60.038 55.000 23.90 0.00 0.00 2.12
445 491 1.016130 GGCGCCGATGATGATAGTGG 61.016 60.000 12.58 0.00 0.00 4.00
446 492 0.319900 GCGCCGATGATGATAGTGGT 60.320 55.000 0.00 0.00 0.00 4.16
447 493 1.873903 GCGCCGATGATGATAGTGGTT 60.874 52.381 0.00 0.00 0.00 3.67
479 536 0.931005 GCTCCAGTGCGTATAGTTGC 59.069 55.000 0.00 0.00 0.00 4.17
507 564 0.671251 GGTCTACGAGCCTGGATCTG 59.329 60.000 10.61 6.34 0.00 2.90
538 595 6.181908 ACTTTTGGTGTTCTTTGTACTACCA 58.818 36.000 0.00 0.00 36.49 3.25
622 1610 7.215719 ACTGTACACTGACACGCATATATAT 57.784 36.000 0.00 0.00 0.00 0.86
693 2327 1.508545 CGGACGATGCACTCTGTCT 59.491 57.895 0.00 0.00 31.96 3.41
702 2336 4.379499 CGATGCACTCTGTCTTACTGTACA 60.379 45.833 0.00 0.00 0.00 2.90
736 2403 5.580691 CGAGCACTATGGTCTGTAAAATTCA 59.419 40.000 6.47 0.00 42.30 2.57
741 2408 6.974622 CACTATGGTCTGTAAAATTCAATGGC 59.025 38.462 0.00 0.00 0.00 4.40
773 2440 2.159085 CCCCGGTGACTATTCAGAAGAC 60.159 54.545 0.00 0.00 30.10 3.01
784 2451 4.613925 ATTCAGAAGACAAGAGAGCACA 57.386 40.909 0.00 0.00 0.00 4.57
825 2557 0.818040 GCTGGTCGTTGGTGGTTTCT 60.818 55.000 0.00 0.00 0.00 2.52
968 2736 3.241530 ACTGCGGTGGCTTCCTCA 61.242 61.111 0.00 0.00 40.82 3.86
1052 2826 0.402121 GCAAGGAAGGAAGTCCCACT 59.598 55.000 0.00 0.00 38.59 4.00
1131 2914 4.484258 GCCTTCGACGAGCTCGCT 62.484 66.667 34.83 21.95 42.62 4.93
1203 2989 5.818678 TTCTCTACAAAGGCTACCTCAAA 57.181 39.130 0.00 0.00 30.89 2.69
1206 2992 5.307196 TCTCTACAAAGGCTACCTCAAAAGT 59.693 40.000 0.00 0.00 30.89 2.66
1242 3028 3.135530 CAGTCCTTTCCTGGCTAGCTAAT 59.864 47.826 15.72 0.00 0.00 1.73
1243 3029 3.389656 AGTCCTTTCCTGGCTAGCTAATC 59.610 47.826 15.72 0.00 0.00 1.75
1244 3030 3.389656 GTCCTTTCCTGGCTAGCTAATCT 59.610 47.826 15.72 0.00 0.00 2.40
1245 3031 4.040755 TCCTTTCCTGGCTAGCTAATCTT 58.959 43.478 15.72 0.00 0.00 2.40
1247 3033 5.044846 TCCTTTCCTGGCTAGCTAATCTTTT 60.045 40.000 15.72 0.00 0.00 2.27
1248 3034 5.654209 CCTTTCCTGGCTAGCTAATCTTTTT 59.346 40.000 15.72 0.00 0.00 1.94
1295 3092 1.378531 TCAGTTTCATATGTGCCGGC 58.621 50.000 22.73 22.73 0.00 6.13
1313 3110 0.952497 GCCGGCATGTCATGATCGAT 60.952 55.000 24.80 0.00 32.81 3.59
1354 3161 5.219343 TGTGTGAGTGGATCCATCATATC 57.781 43.478 19.62 11.61 0.00 1.63
1427 3920 3.999001 TCATCATCAGAGCAACTCAACAC 59.001 43.478 0.00 0.00 32.06 3.32
1452 3945 0.107643 TTCTTGCCCGTGTCATGACA 59.892 50.000 24.56 24.56 39.32 3.58
1540 4033 4.495422 GATCTTGGTTCACGAGTACATGT 58.505 43.478 2.69 2.69 32.04 3.21
1566 4060 3.140144 TGGGTTCTCTCCAAAATCACCTT 59.860 43.478 0.00 0.00 0.00 3.50
1812 4335 0.526524 CTCGGACATCTTGCTCGGAC 60.527 60.000 0.00 0.00 0.00 4.79
1890 4416 1.266175 CGGAGGATGATGAGCAATTGC 59.734 52.381 23.05 23.05 42.49 3.56
2086 4619 6.069847 TGGGTAAGTTAACTATAGCCAAGCTT 60.070 38.462 27.76 0.00 42.46 3.74
2307 4859 4.839706 ATCCCCCATTGGCACCGC 62.840 66.667 0.00 0.00 0.00 5.68
2474 5046 9.998106 AATTACTCACTTAATGTAGTTGTGACT 57.002 29.630 0.00 0.00 39.97 3.41
2475 5047 9.998106 ATTACTCACTTAATGTAGTTGTGACTT 57.002 29.630 0.00 0.00 37.33 3.01
2476 5048 7.715265 ACTCACTTAATGTAGTTGTGACTTG 57.285 36.000 0.00 0.00 37.33 3.16
2477 5049 7.272978 ACTCACTTAATGTAGTTGTGACTTGT 58.727 34.615 0.00 0.00 37.33 3.16
2478 5050 7.224753 ACTCACTTAATGTAGTTGTGACTTGTG 59.775 37.037 0.00 0.00 37.33 3.33
2479 5051 7.269316 TCACTTAATGTAGTTGTGACTTGTGA 58.731 34.615 0.00 0.00 37.33 3.58
2603 5189 8.342634 CCCGTATTAATGGATTTAGAAGTTGTG 58.657 37.037 0.00 0.00 33.01 3.33
2612 5198 6.039270 TGGATTTAGAAGTTGTGTTGGTTCTG 59.961 38.462 0.00 0.00 31.69 3.02
2751 7100 3.054802 GGATCTGTGGACTCCAAGTTCAT 60.055 47.826 0.00 0.00 35.88 2.57
2858 7607 4.333649 TCAAGTCTGAAGTTGCTTTCACAG 59.666 41.667 0.00 0.00 36.03 3.66
2906 7655 3.296611 CTCTGGAGCTCCCTCAAGA 57.703 57.895 29.95 22.79 44.21 3.02
2907 7656 1.792115 CTCTGGAGCTCCCTCAAGAT 58.208 55.000 29.95 0.00 45.05 2.40
2908 7657 1.413445 CTCTGGAGCTCCCTCAAGATG 59.587 57.143 29.95 14.43 45.05 2.90
2910 7659 1.148048 GGAGCTCCCTCAAGATGGC 59.852 63.158 23.19 0.00 39.96 4.40
2911 7660 1.344191 GGAGCTCCCTCAAGATGGCT 61.344 60.000 23.19 0.00 39.96 4.75
2912 7661 0.545646 GAGCTCCCTCAAGATGGCTT 59.454 55.000 0.87 0.00 38.03 4.35
2914 7663 0.254178 GCTCCCTCAAGATGGCTTCA 59.746 55.000 3.03 0.00 30.14 3.02
2928 7681 4.134379 TGGCTTCATTTTCTTTGTGCAA 57.866 36.364 0.00 0.00 0.00 4.08
2929 7682 3.870419 TGGCTTCATTTTCTTTGTGCAAC 59.130 39.130 0.00 0.00 37.35 4.17
2947 9376 7.696755 TGTGCAACATACAAGATATCATGTTC 58.303 34.615 17.93 11.64 45.67 3.18
2948 9377 7.553760 TGTGCAACATACAAGATATCATGTTCT 59.446 33.333 17.93 4.76 45.67 3.01
2949 9378 8.066595 GTGCAACATACAAGATATCATGTTCTC 58.933 37.037 17.93 11.54 39.06 2.87
2950 9379 7.989170 TGCAACATACAAGATATCATGTTCTCT 59.011 33.333 17.93 0.32 39.06 3.10
2951 9380 8.834465 GCAACATACAAGATATCATGTTCTCTT 58.166 33.333 17.93 3.75 39.06 2.85
3004 9449 6.377996 TGTCCAATTATTTATCTGTTGCTGCT 59.622 34.615 0.00 0.00 0.00 4.24
3029 9474 6.905736 TCCATGGCCTAATGTGATAAGTTAA 58.094 36.000 6.96 0.00 0.00 2.01
3052 9497 9.720769 TTAATTTCCATAGGATATTTCGAGACC 57.279 33.333 6.97 0.00 35.57 3.85
3053 9498 5.740290 TTCCATAGGATATTTCGAGACCC 57.260 43.478 0.00 0.00 0.00 4.46
3054 9499 4.747583 TCCATAGGATATTTCGAGACCCA 58.252 43.478 0.00 0.00 0.00 4.51
3055 9500 5.152193 TCCATAGGATATTTCGAGACCCAA 58.848 41.667 0.00 0.00 0.00 4.12
3056 9501 5.246203 TCCATAGGATATTTCGAGACCCAAG 59.754 44.000 0.00 0.00 0.00 3.61
3057 9502 5.246203 CCATAGGATATTTCGAGACCCAAGA 59.754 44.000 0.00 0.00 0.00 3.02
3058 9503 4.674281 AGGATATTTCGAGACCCAAGAC 57.326 45.455 0.00 0.00 0.00 3.01
3059 9504 4.030913 AGGATATTTCGAGACCCAAGACA 58.969 43.478 0.00 0.00 0.00 3.41
3060 9505 4.656112 AGGATATTTCGAGACCCAAGACAT 59.344 41.667 0.00 0.00 0.00 3.06
3061 9506 5.839063 AGGATATTTCGAGACCCAAGACATA 59.161 40.000 0.00 0.00 0.00 2.29
3062 9507 6.498651 AGGATATTTCGAGACCCAAGACATAT 59.501 38.462 0.00 0.00 0.00 1.78
3063 9508 6.814146 GGATATTTCGAGACCCAAGACATATC 59.186 42.308 0.00 3.55 35.20 1.63
3064 9509 5.614324 ATTTCGAGACCCAAGACATATCA 57.386 39.130 0.00 0.00 0.00 2.15
3065 9510 5.614324 TTTCGAGACCCAAGACATATCAT 57.386 39.130 0.00 0.00 0.00 2.45
3066 9511 4.855715 TCGAGACCCAAGACATATCATC 57.144 45.455 0.00 0.00 0.00 2.92
3067 9512 3.253432 TCGAGACCCAAGACATATCATCG 59.747 47.826 0.00 0.00 0.00 3.84
3068 9513 3.004839 CGAGACCCAAGACATATCATCGT 59.995 47.826 0.00 0.00 0.00 3.73
3069 9514 4.215613 CGAGACCCAAGACATATCATCGTA 59.784 45.833 0.00 0.00 0.00 3.43
3070 9515 5.455056 AGACCCAAGACATATCATCGTAC 57.545 43.478 0.00 0.00 0.00 3.67
3071 9516 4.281182 AGACCCAAGACATATCATCGTACC 59.719 45.833 0.00 0.00 0.00 3.34
3072 9517 3.964688 ACCCAAGACATATCATCGTACCA 59.035 43.478 0.00 0.00 0.00 3.25
3073 9518 4.202223 ACCCAAGACATATCATCGTACCAC 60.202 45.833 0.00 0.00 0.00 4.16
3074 9519 3.981416 CCAAGACATATCATCGTACCACG 59.019 47.826 0.00 0.00 44.19 4.94
3075 9520 3.284323 AGACATATCATCGTACCACGC 57.716 47.619 0.00 0.00 42.21 5.34
3076 9521 1.976728 GACATATCATCGTACCACGCG 59.023 52.381 3.53 3.53 42.21 6.01
3077 9522 1.335597 ACATATCATCGTACCACGCGG 60.336 52.381 12.47 0.00 42.21 6.46
3079 9524 0.740149 TATCATCGTACCACGCGGTT 59.260 50.000 12.47 0.00 46.31 4.44
3080 9525 0.804544 ATCATCGTACCACGCGGTTG 60.805 55.000 12.47 0.00 46.31 3.77
3081 9526 1.735198 CATCGTACCACGCGGTTGT 60.735 57.895 12.47 6.88 46.31 3.32
3082 9527 0.456482 CATCGTACCACGCGGTTGTA 60.456 55.000 12.47 5.76 46.31 2.41
3083 9528 0.456653 ATCGTACCACGCGGTTGTAC 60.457 55.000 12.47 16.79 46.31 2.90
3084 9529 2.088178 CGTACCACGCGGTTGTACC 61.088 63.158 21.40 10.03 46.31 3.34
3085 9530 1.737735 GTACCACGCGGTTGTACCC 60.738 63.158 12.47 0.00 46.31 3.69
3086 9531 1.907807 TACCACGCGGTTGTACCCT 60.908 57.895 12.47 0.00 46.31 4.34
3087 9532 1.876497 TACCACGCGGTTGTACCCTC 61.876 60.000 12.47 0.00 46.31 4.30
3088 9533 2.654877 CACGCGGTTGTACCCTCT 59.345 61.111 12.47 0.00 33.75 3.69
3089 9534 1.445582 CACGCGGTTGTACCCTCTC 60.446 63.158 12.47 0.00 33.75 3.20
3090 9535 2.202570 CGCGGTTGTACCCTCTCG 60.203 66.667 0.00 0.00 33.75 4.04
3091 9536 2.508663 GCGGTTGTACCCTCTCGC 60.509 66.667 0.00 0.00 33.75 5.03
3092 9537 2.202570 CGGTTGTACCCTCTCGCG 60.203 66.667 0.00 0.00 33.75 5.87
3093 9538 2.968206 GGTTGTACCCTCTCGCGT 59.032 61.111 5.77 0.00 30.04 6.01
3094 9539 1.153881 GGTTGTACCCTCTCGCGTC 60.154 63.158 5.77 0.00 30.04 5.19
3095 9540 1.513586 GTTGTACCCTCTCGCGTCG 60.514 63.158 5.77 0.00 0.00 5.12
3096 9541 3.332493 TTGTACCCTCTCGCGTCGC 62.332 63.158 7.29 7.29 0.00 5.19
3097 9542 3.507009 GTACCCTCTCGCGTCGCT 61.507 66.667 16.36 0.00 0.00 4.93
3098 9543 3.200593 TACCCTCTCGCGTCGCTC 61.201 66.667 16.36 0.00 0.00 5.03
3162 9607 4.798682 TCCCCCGCCCCTCTTCTC 62.799 72.222 0.00 0.00 0.00 2.87
3166 9611 4.806339 CCGCCCCTCTTCTCCCCT 62.806 72.222 0.00 0.00 0.00 4.79
3167 9612 2.689034 CGCCCCTCTTCTCCCCTT 60.689 66.667 0.00 0.00 0.00 3.95
3168 9613 3.002371 GCCCCTCTTCTCCCCTTG 58.998 66.667 0.00 0.00 0.00 3.61
3169 9614 3.002371 CCCCTCTTCTCCCCTTGC 58.998 66.667 0.00 0.00 0.00 4.01
3170 9615 2.684499 CCCCTCTTCTCCCCTTGCC 61.684 68.421 0.00 0.00 0.00 4.52
3171 9616 2.586792 CCTCTTCTCCCCTTGCCG 59.413 66.667 0.00 0.00 0.00 5.69
3172 9617 2.124942 CTCTTCTCCCCTTGCCGC 60.125 66.667 0.00 0.00 0.00 6.53
3173 9618 3.689002 CTCTTCTCCCCTTGCCGCC 62.689 68.421 0.00 0.00 0.00 6.13
3208 9653 2.750237 GGCAAAGCCCGGTAGGTG 60.750 66.667 0.00 0.00 44.06 4.00
3209 9654 3.440415 GCAAAGCCCGGTAGGTGC 61.440 66.667 0.00 0.61 38.26 5.01
3210 9655 2.351276 CAAAGCCCGGTAGGTGCT 59.649 61.111 0.00 0.00 43.00 4.40
3211 9656 2.040544 CAAAGCCCGGTAGGTGCTG 61.041 63.158 0.00 0.00 41.22 4.41
3212 9657 3.268103 AAAGCCCGGTAGGTGCTGG 62.268 63.158 0.00 0.00 41.22 4.85
3218 9663 4.778143 GGTAGGTGCTGGCGGTGG 62.778 72.222 0.00 0.00 0.00 4.61
3237 9682 4.523282 GGGGCCCCATCTCCTCCT 62.523 72.222 37.61 0.00 35.81 3.69
3238 9683 2.851588 GGGCCCCATCTCCTCCTC 60.852 72.222 12.23 0.00 0.00 3.71
3239 9684 3.237741 GGCCCCATCTCCTCCTCG 61.238 72.222 0.00 0.00 0.00 4.63
3240 9685 3.934962 GCCCCATCTCCTCCTCGC 61.935 72.222 0.00 0.00 0.00 5.03
3241 9686 3.610669 CCCCATCTCCTCCTCGCG 61.611 72.222 0.00 0.00 0.00 5.87
3242 9687 4.292178 CCCATCTCCTCCTCGCGC 62.292 72.222 0.00 0.00 0.00 6.86
3243 9688 4.637489 CCATCTCCTCCTCGCGCG 62.637 72.222 26.76 26.76 0.00 6.86
3244 9689 3.586961 CATCTCCTCCTCGCGCGA 61.587 66.667 32.60 32.60 0.00 5.87
3245 9690 3.283684 ATCTCCTCCTCGCGCGAG 61.284 66.667 44.25 44.25 41.63 5.03
3294 9739 4.160635 GGCAACGCGTTCATCCGG 62.161 66.667 23.92 11.10 0.00 5.14
3295 9740 4.160635 GCAACGCGTTCATCCGGG 62.161 66.667 23.92 10.31 45.18 5.73
3296 9741 3.496131 CAACGCGTTCATCCGGGG 61.496 66.667 23.92 4.19 44.12 5.73
3343 9788 4.996434 GGTGCTGCAGTGCCTCGT 62.996 66.667 16.64 0.00 0.00 4.18
3344 9789 3.418068 GTGCTGCAGTGCCTCGTC 61.418 66.667 16.64 0.00 0.00 4.20
3345 9790 4.687215 TGCTGCAGTGCCTCGTCC 62.687 66.667 16.64 0.00 0.00 4.79
3346 9791 4.385405 GCTGCAGTGCCTCGTCCT 62.385 66.667 16.64 0.00 0.00 3.85
3347 9792 2.433838 CTGCAGTGCCTCGTCCTG 60.434 66.667 13.72 0.00 0.00 3.86
3354 9799 4.819761 GCCTCGTCCTGCGCATGA 62.820 66.667 12.24 11.87 41.07 3.07
3355 9800 2.125552 CCTCGTCCTGCGCATGAA 60.126 61.111 17.22 1.90 41.07 2.57
3356 9801 2.169789 CCTCGTCCTGCGCATGAAG 61.170 63.158 17.22 18.43 41.07 3.02
3357 9802 2.125552 TCGTCCTGCGCATGAAGG 60.126 61.111 23.40 16.33 43.21 3.46
3358 9803 3.197790 CGTCCTGCGCATGAAGGG 61.198 66.667 17.22 11.66 41.94 3.95
3365 9810 4.776322 CGCATGAAGGGCCGGACA 62.776 66.667 11.00 0.00 0.00 4.02
3366 9811 3.134127 GCATGAAGGGCCGGACAC 61.134 66.667 11.00 0.00 0.00 3.67
3367 9812 2.819595 CATGAAGGGCCGGACACG 60.820 66.667 11.00 0.00 40.55 4.49
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
15 16 2.233922 CCCGAGTGTTGTCTTATCCACT 59.766 50.000 0.00 0.00 40.67 4.00
20 21 1.207329 GCTCCCCGAGTGTTGTCTTAT 59.793 52.381 0.00 0.00 31.39 1.73
24 25 0.534203 TTTGCTCCCCGAGTGTTGTC 60.534 55.000 0.00 0.00 31.39 3.18
26 27 0.804989 GATTTGCTCCCCGAGTGTTG 59.195 55.000 0.00 0.00 31.39 3.33
39 40 5.796350 TTAACTTAAGAGCGAGGATTTGC 57.204 39.130 10.09 0.00 0.00 3.68
128 129 9.940974 TCATACTACAAGATTTAAGGGGTAGTA 57.059 33.333 10.71 10.71 43.98 1.82
129 130 8.849543 TCATACTACAAGATTTAAGGGGTAGT 57.150 34.615 0.00 0.00 42.68 2.73
130 131 9.712305 CATCATACTACAAGATTTAAGGGGTAG 57.288 37.037 0.00 0.00 35.53 3.18
131 132 9.220906 ACATCATACTACAAGATTTAAGGGGTA 57.779 33.333 0.00 0.00 0.00 3.69
132 133 8.102484 ACATCATACTACAAGATTTAAGGGGT 57.898 34.615 0.00 0.00 0.00 4.95
133 134 9.490379 GTACATCATACTACAAGATTTAAGGGG 57.510 37.037 0.00 0.00 0.00 4.79
134 135 9.490379 GGTACATCATACTACAAGATTTAAGGG 57.510 37.037 0.00 0.00 0.00 3.95
135 136 9.193133 CGGTACATCATACTACAAGATTTAAGG 57.807 37.037 0.00 0.00 0.00 2.69
136 137 9.745880 ACGGTACATCATACTACAAGATTTAAG 57.254 33.333 0.00 0.00 0.00 1.85
158 159 9.257651 GCACTAACATTAAGAGATTATTACGGT 57.742 33.333 0.00 0.00 0.00 4.83
159 160 9.256477 TGCACTAACATTAAGAGATTATTACGG 57.744 33.333 0.00 0.00 0.00 4.02
226 227 9.197694 GCATAGAACTGACCATAAGTAATGTAG 57.802 37.037 0.00 0.00 33.34 2.74
244 245 6.058183 ACAAGATCTATTGGGTGCATAGAAC 58.942 40.000 0.00 0.00 36.92 3.01
291 292 0.974383 AAACGAAGACCGGATCCACT 59.026 50.000 9.46 4.92 43.93 4.00
310 331 2.094130 TGTAGACACACAAACACCGACA 60.094 45.455 0.00 0.00 0.00 4.35
350 371 3.329386 TCCGCTGATGAAGAGAAAAGTG 58.671 45.455 0.00 0.00 0.00 3.16
366 387 3.767673 TCACTAGAATAACAACCTCCGCT 59.232 43.478 0.00 0.00 0.00 5.52
387 408 1.404843 AGACCCGATAGAACCAGCTC 58.595 55.000 0.00 0.00 39.76 4.09
388 409 2.091775 AGTAGACCCGATAGAACCAGCT 60.092 50.000 0.00 0.00 39.76 4.24
395 416 5.163120 ACCTTGATGTAGTAGACCCGATAGA 60.163 44.000 0.00 0.00 39.76 1.98
400 421 4.181578 CAAACCTTGATGTAGTAGACCCG 58.818 47.826 0.00 0.00 0.00 5.28
437 483 0.174845 CCGAAGGCGAACCACTATCA 59.825 55.000 0.00 0.00 46.14 2.15
487 544 0.820074 AGATCCAGGCTCGTAGACCG 60.820 60.000 0.00 0.00 33.91 4.79
495 552 6.765915 AAAGTAAAAATCAGATCCAGGCTC 57.234 37.500 0.00 0.00 0.00 4.70
497 554 6.101997 CCAAAAGTAAAAATCAGATCCAGGC 58.898 40.000 0.00 0.00 0.00 4.85
499 556 7.661040 ACACCAAAAGTAAAAATCAGATCCAG 58.339 34.615 0.00 0.00 0.00 3.86
534 591 7.014230 TCGATCTAATCATCAACTGTCATGGTA 59.986 37.037 0.00 0.00 0.00 3.25
538 595 7.984050 ACTTTCGATCTAATCATCAACTGTCAT 59.016 33.333 0.00 0.00 0.00 3.06
599 1130 7.425595 CGTATATATATGCGTGTCAGTGTACAG 59.574 40.741 20.96 0.00 37.10 2.74
601 1200 6.685828 CCGTATATATATGCGTGTCAGTGTAC 59.314 42.308 25.19 3.67 39.62 2.90
602 1201 6.676213 GCCGTATATATATGCGTGTCAGTGTA 60.676 42.308 25.19 0.00 39.62 2.90
607 1595 4.976224 AGCCGTATATATATGCGTGTCA 57.024 40.909 25.19 0.00 39.62 3.58
608 1596 7.567048 GCATAAAGCCGTATATATATGCGTGTC 60.567 40.741 25.19 16.27 39.62 3.67
613 1601 6.706270 ACCTGCATAAAGCCGTATATATATGC 59.294 38.462 13.36 13.36 44.83 3.14
622 1610 1.406341 GGACACCTGCATAAAGCCGTA 60.406 52.381 0.00 0.00 44.83 4.02
675 2296 0.109086 AAGACAGAGTGCATCGTCCG 60.109 55.000 0.00 0.00 34.21 4.79
676 2297 2.164624 AGTAAGACAGAGTGCATCGTCC 59.835 50.000 0.00 0.00 34.21 4.79
693 2327 5.159209 GCTCGAGTTTAGCTTGTACAGTAA 58.841 41.667 15.13 0.00 37.01 2.24
702 2336 3.195825 ACCATAGTGCTCGAGTTTAGCTT 59.804 43.478 15.13 0.00 40.73 3.74
736 2403 0.038021 GGGGTTGCATTTTGGCCATT 59.962 50.000 6.09 0.00 0.00 3.16
741 2408 1.005156 CACCGGGGTTGCATTTTGG 60.005 57.895 6.32 0.00 0.00 3.28
773 2440 3.657015 TTCTCTGACTGTGCTCTCTTG 57.343 47.619 0.00 0.00 0.00 3.02
784 2451 5.415221 GCAAGTAGCAGTATTTCTCTGACT 58.585 41.667 0.00 0.00 44.79 3.41
825 2557 1.959226 GCGTCTCCTGCCGAAAACA 60.959 57.895 0.00 0.00 0.00 2.83
847 2589 1.555477 GAAACCACCAACAACTTGCG 58.445 50.000 0.00 0.00 0.00 4.85
904 2646 2.507769 GCACTACGTACGGTGGCC 60.508 66.667 21.06 0.00 34.41 5.36
912 2654 4.118995 CCGGCACCGCACTACGTA 62.119 66.667 2.83 0.00 41.42 3.57
980 2748 6.126739 ACCCATTAATCTTCTTACCTCACCTC 60.127 42.308 0.00 0.00 0.00 3.85
1131 2914 3.876589 GAAGTTCCTGGTCGCCGCA 62.877 63.158 0.00 0.00 0.00 5.69
1221 3007 2.552093 TAGCTAGCCAGGAAAGGACT 57.448 50.000 12.13 0.00 0.00 3.85
1222 3008 3.389656 AGATTAGCTAGCCAGGAAAGGAC 59.610 47.826 12.13 0.00 0.00 3.85
1263 3049 9.247861 ACATATGAAACTGAAAGGATTAGCTTT 57.752 29.630 10.38 0.00 39.30 3.51
1264 3050 8.680903 CACATATGAAACTGAAAGGATTAGCTT 58.319 33.333 10.38 0.00 39.30 3.74
1265 3051 7.201767 GCACATATGAAACTGAAAGGATTAGCT 60.202 37.037 10.38 0.00 39.30 3.32
1266 3052 6.914757 GCACATATGAAACTGAAAGGATTAGC 59.085 38.462 10.38 0.00 39.30 3.09
1267 3053 7.420800 GGCACATATGAAACTGAAAGGATTAG 58.579 38.462 10.38 0.00 39.30 1.73
1268 3054 6.038161 CGGCACATATGAAACTGAAAGGATTA 59.962 38.462 10.38 0.00 39.30 1.75
1269 3055 5.163622 CGGCACATATGAAACTGAAAGGATT 60.164 40.000 10.38 0.00 39.30 3.01
1270 3056 4.336433 CGGCACATATGAAACTGAAAGGAT 59.664 41.667 10.38 0.00 39.30 3.24
1271 3057 3.689161 CGGCACATATGAAACTGAAAGGA 59.311 43.478 10.38 0.00 39.30 3.36
1272 3058 3.181497 CCGGCACATATGAAACTGAAAGG 60.181 47.826 10.38 0.00 39.30 3.11
1273 3059 3.731867 GCCGGCACATATGAAACTGAAAG 60.732 47.826 24.80 0.00 42.29 2.62
1274 3060 2.163412 GCCGGCACATATGAAACTGAAA 59.837 45.455 24.80 0.00 0.00 2.69
1275 3061 1.742831 GCCGGCACATATGAAACTGAA 59.257 47.619 24.80 0.00 0.00 3.02
1295 3092 0.794473 CATCGATCATGACATGCCGG 59.206 55.000 21.42 0.00 33.80 6.13
1313 3110 1.073763 CATCAGTTTCCCCCTCACACA 59.926 52.381 0.00 0.00 0.00 3.72
1354 3161 0.102481 ATAGCAACGACCTACAGCGG 59.898 55.000 0.00 0.00 0.00 5.52
1427 3920 1.566018 GACACGGGCAAGAAACTCCG 61.566 60.000 0.00 0.00 46.95 4.63
1472 3965 3.073678 CCAATGAGGTTGACGACATTCA 58.926 45.455 0.00 0.00 40.37 2.57
1540 4033 4.766891 GTGATTTTGGAGAGAACCCAATGA 59.233 41.667 0.00 0.00 42.63 2.57
1812 4335 0.323725 AGCTTTGGGTGGTAGCCATG 60.324 55.000 0.04 0.00 46.30 3.66
1864 4387 1.579698 CTCATCATCCTCCGCAACTG 58.420 55.000 0.00 0.00 0.00 3.16
1890 4416 2.603110 CGGTTCTGGTGACATTGATACG 59.397 50.000 0.00 0.00 41.51 3.06
2123 4666 4.106029 ACAAGCTTCACATCATTCATGC 57.894 40.909 0.00 0.00 35.65 4.06
2259 4811 1.000060 GCTGTTTGTGGATGCACATGT 60.000 47.619 21.42 0.00 34.76 3.21
2377 4929 1.669795 CGTTTCGCCCTAGGTTAACGT 60.670 52.381 18.85 6.03 0.00 3.99
2407 4968 0.969149 TTGTGTCTGGAGATGACGCT 59.031 50.000 8.53 0.00 43.12 5.07
2455 5022 7.477144 TCACAAGTCACAACTACATTAAGTG 57.523 36.000 0.00 0.00 33.48 3.16
2460 5027 4.708177 AGCTCACAAGTCACAACTACATT 58.292 39.130 0.00 0.00 33.48 2.71
2465 5032 2.679837 CACAAGCTCACAAGTCACAACT 59.320 45.455 0.00 0.00 37.32 3.16
2474 5046 0.867746 GCGACATCACAAGCTCACAA 59.132 50.000 0.00 0.00 0.00 3.33
2475 5047 0.033920 AGCGACATCACAAGCTCACA 59.966 50.000 0.00 0.00 34.48 3.58
2476 5048 1.136141 CAAGCGACATCACAAGCTCAC 60.136 52.381 0.00 0.00 39.25 3.51
2477 5049 1.150827 CAAGCGACATCACAAGCTCA 58.849 50.000 0.00 0.00 39.25 4.26
2478 5050 1.151668 ACAAGCGACATCACAAGCTC 58.848 50.000 0.00 0.00 39.25 4.09
2479 5051 1.265095 CAACAAGCGACATCACAAGCT 59.735 47.619 0.00 0.00 42.35 3.74
2603 5189 2.358322 TTTCCACCTCCAGAACCAAC 57.642 50.000 0.00 0.00 0.00 3.77
2612 5198 1.743394 CGCACCTTAATTTCCACCTCC 59.257 52.381 0.00 0.00 0.00 4.30
2751 7100 5.353123 GTCTCCCGCTTATTTTTACATGTCA 59.647 40.000 0.00 0.00 0.00 3.58
2837 7586 4.889832 CTGTGAAAGCAACTTCAGACTT 57.110 40.909 0.00 0.00 36.01 3.01
2858 7607 7.095439 GCTGAAGTATAAGAATATGACAGTGGC 60.095 40.741 0.00 0.00 0.00 5.01
2906 7655 4.339872 TGCACAAAGAAAATGAAGCCAT 57.660 36.364 0.00 0.00 33.66 4.40
2907 7656 3.815856 TGCACAAAGAAAATGAAGCCA 57.184 38.095 0.00 0.00 0.00 4.75
2908 7657 3.870419 TGTTGCACAAAGAAAATGAAGCC 59.130 39.130 0.00 0.00 0.00 4.35
2910 7659 7.697352 TGTATGTTGCACAAAGAAAATGAAG 57.303 32.000 0.00 0.00 0.00 3.02
2911 7660 7.978414 TCTTGTATGTTGCACAAAGAAAATGAA 59.022 29.630 0.00 0.00 35.57 2.57
2912 7661 7.487484 TCTTGTATGTTGCACAAAGAAAATGA 58.513 30.769 0.00 0.00 35.57 2.57
2950 9379 9.368674 CCAACTTGCAATGATAAATCACATAAA 57.631 29.630 0.00 0.00 40.03 1.40
2951 9380 7.980662 CCCAACTTGCAATGATAAATCACATAA 59.019 33.333 0.00 0.00 40.03 1.90
2995 9440 2.277591 GGCCATGGAAGCAGCAACA 61.278 57.895 18.40 0.00 0.00 3.33
2996 9441 0.680921 TAGGCCATGGAAGCAGCAAC 60.681 55.000 18.40 0.00 0.00 4.17
2997 9442 0.039472 TTAGGCCATGGAAGCAGCAA 59.961 50.000 18.40 0.00 0.00 3.91
3004 9449 5.387113 ACTTATCACATTAGGCCATGGAA 57.613 39.130 18.40 0.30 0.00 3.53
3029 9474 6.272324 TGGGTCTCGAAATATCCTATGGAAAT 59.728 38.462 0.00 0.00 34.34 2.17
3037 9482 4.030913 TGTCTTGGGTCTCGAAATATCCT 58.969 43.478 0.00 0.00 0.00 3.24
3038 9483 4.402056 TGTCTTGGGTCTCGAAATATCC 57.598 45.455 0.00 0.00 0.00 2.59
3039 9484 7.378966 TGATATGTCTTGGGTCTCGAAATATC 58.621 38.462 0.00 0.00 35.98 1.63
3040 9485 7.303182 TGATATGTCTTGGGTCTCGAAATAT 57.697 36.000 0.00 0.00 0.00 1.28
3041 9486 6.724893 TGATATGTCTTGGGTCTCGAAATA 57.275 37.500 0.00 0.00 0.00 1.40
3042 9487 5.614324 TGATATGTCTTGGGTCTCGAAAT 57.386 39.130 0.00 0.00 0.00 2.17
3043 9488 5.601662 GATGATATGTCTTGGGTCTCGAAA 58.398 41.667 0.00 0.00 0.00 3.46
3044 9489 4.261614 CGATGATATGTCTTGGGTCTCGAA 60.262 45.833 0.00 0.00 0.00 3.71
3045 9490 3.253432 CGATGATATGTCTTGGGTCTCGA 59.747 47.826 0.00 0.00 0.00 4.04
3046 9491 3.004839 ACGATGATATGTCTTGGGTCTCG 59.995 47.826 0.00 0.00 0.00 4.04
3047 9492 4.592485 ACGATGATATGTCTTGGGTCTC 57.408 45.455 0.00 0.00 0.00 3.36
3048 9493 4.281182 GGTACGATGATATGTCTTGGGTCT 59.719 45.833 0.00 0.00 0.00 3.85
3049 9494 4.038763 TGGTACGATGATATGTCTTGGGTC 59.961 45.833 0.00 0.00 0.00 4.46
3050 9495 3.964688 TGGTACGATGATATGTCTTGGGT 59.035 43.478 0.00 0.00 0.00 4.51
3051 9496 4.307432 GTGGTACGATGATATGTCTTGGG 58.693 47.826 0.00 0.00 0.00 4.12
3052 9497 3.981416 CGTGGTACGATGATATGTCTTGG 59.019 47.826 0.00 0.00 46.05 3.61
3053 9498 3.425525 GCGTGGTACGATGATATGTCTTG 59.574 47.826 5.44 0.00 46.05 3.02
3054 9499 3.639538 GCGTGGTACGATGATATGTCTT 58.360 45.455 5.44 0.00 46.05 3.01
3055 9500 2.350484 CGCGTGGTACGATGATATGTCT 60.350 50.000 5.44 0.00 46.05 3.41
3056 9501 1.976728 CGCGTGGTACGATGATATGTC 59.023 52.381 5.44 0.00 46.05 3.06
3057 9502 1.335597 CCGCGTGGTACGATGATATGT 60.336 52.381 6.91 0.00 46.05 2.29
3058 9503 1.336877 CCGCGTGGTACGATGATATG 58.663 55.000 6.91 0.00 46.05 1.78
3059 9504 3.786809 CCGCGTGGTACGATGATAT 57.213 52.632 6.91 0.00 46.05 1.63
3070 9515 2.433664 GAGGGTACAACCGCGTGG 60.434 66.667 14.93 14.93 39.83 4.94
3071 9516 1.445582 GAGAGGGTACAACCGCGTG 60.446 63.158 4.92 0.00 39.83 5.34
3072 9517 2.968206 GAGAGGGTACAACCGCGT 59.032 61.111 4.92 0.00 39.83 6.01
3073 9518 2.202570 CGAGAGGGTACAACCGCG 60.203 66.667 0.00 0.00 39.83 6.46
3074 9519 2.508663 GCGAGAGGGTACAACCGC 60.509 66.667 0.00 0.00 39.83 5.68
3075 9520 2.202570 CGCGAGAGGGTACAACCG 60.203 66.667 0.00 0.00 39.83 4.44
3145 9590 4.798682 GAGAAGAGGGGCGGGGGA 62.799 72.222 0.00 0.00 0.00 4.81
3149 9594 4.806339 AGGGGAGAAGAGGGGCGG 62.806 72.222 0.00 0.00 0.00 6.13
3150 9595 2.689034 AAGGGGAGAAGAGGGGCG 60.689 66.667 0.00 0.00 0.00 6.13
3151 9596 3.002371 CAAGGGGAGAAGAGGGGC 58.998 66.667 0.00 0.00 0.00 5.80
3152 9597 2.684499 GGCAAGGGGAGAAGAGGGG 61.684 68.421 0.00 0.00 0.00 4.79
3153 9598 3.002371 GGCAAGGGGAGAAGAGGG 58.998 66.667 0.00 0.00 0.00 4.30
3154 9599 2.586792 CGGCAAGGGGAGAAGAGG 59.413 66.667 0.00 0.00 0.00 3.69
3155 9600 2.124942 GCGGCAAGGGGAGAAGAG 60.125 66.667 0.00 0.00 0.00 2.85
3156 9601 3.717294 GGCGGCAAGGGGAGAAGA 61.717 66.667 3.07 0.00 0.00 2.87
3192 9637 3.440415 GCACCTACCGGGCTTTGC 61.440 66.667 6.32 5.41 39.10 3.68
3193 9638 2.040544 CAGCACCTACCGGGCTTTG 61.041 63.158 6.32 0.00 35.48 2.77
3194 9639 2.351276 CAGCACCTACCGGGCTTT 59.649 61.111 6.32 0.00 35.48 3.51
3195 9640 3.717294 CCAGCACCTACCGGGCTT 61.717 66.667 6.32 0.00 35.48 4.35
3201 9646 4.778143 CCACCGCCAGCACCTACC 62.778 72.222 0.00 0.00 0.00 3.18
3220 9665 4.523282 AGGAGGAGATGGGGCCCC 62.523 72.222 36.14 36.14 0.00 5.80
3221 9666 2.851588 GAGGAGGAGATGGGGCCC 60.852 72.222 18.17 18.17 0.00 5.80
3222 9667 3.237741 CGAGGAGGAGATGGGGCC 61.238 72.222 0.00 0.00 0.00 5.80
3223 9668 3.934962 GCGAGGAGGAGATGGGGC 61.935 72.222 0.00 0.00 0.00 5.80
3224 9669 3.610669 CGCGAGGAGGAGATGGGG 61.611 72.222 0.00 0.00 0.00 4.96
3225 9670 4.292178 GCGCGAGGAGGAGATGGG 62.292 72.222 12.10 0.00 0.00 4.00
3226 9671 4.637489 CGCGCGAGGAGGAGATGG 62.637 72.222 28.94 0.00 0.00 3.51
3227 9672 3.534970 CTCGCGCGAGGAGGAGATG 62.535 68.421 43.86 22.07 38.51 2.90
3228 9673 3.283684 CTCGCGCGAGGAGGAGAT 61.284 66.667 43.86 0.00 38.51 2.75
3276 9721 4.499023 CGGATGAACGCGTTGCCG 62.499 66.667 31.89 30.74 37.07 5.69
3277 9722 4.160635 CCGGATGAACGCGTTGCC 62.161 66.667 31.89 24.34 0.00 4.52
3278 9723 4.160635 CCCGGATGAACGCGTTGC 62.161 66.667 31.89 20.32 0.00 4.17
3279 9724 3.496131 CCCCGGATGAACGCGTTG 61.496 66.667 31.89 14.46 0.00 4.10
3326 9771 4.996434 ACGAGGCACTGCAGCACC 62.996 66.667 15.27 15.75 41.55 5.01
3327 9772 3.418068 GACGAGGCACTGCAGCAC 61.418 66.667 15.27 5.74 41.55 4.40
3328 9773 4.687215 GGACGAGGCACTGCAGCA 62.687 66.667 15.27 0.00 41.55 4.41
3329 9774 4.385405 AGGACGAGGCACTGCAGC 62.385 66.667 15.27 0.33 41.55 5.25
3330 9775 2.433838 CAGGACGAGGCACTGCAG 60.434 66.667 13.48 13.48 41.55 4.41
3342 9787 3.512516 GCCCTTCATGCGCAGGAC 61.513 66.667 26.21 9.63 30.81 3.85
3343 9788 4.802051 GGCCCTTCATGCGCAGGA 62.802 66.667 22.47 22.47 30.81 3.86
3348 9793 4.776322 TGTCCGGCCCTTCATGCG 62.776 66.667 0.00 0.00 0.00 4.73
3349 9794 3.134127 GTGTCCGGCCCTTCATGC 61.134 66.667 0.00 0.00 0.00 4.06
3350 9795 2.819595 CGTGTCCGGCCCTTCATG 60.820 66.667 0.00 0.00 0.00 3.07


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.